    This is the modeling package to accompany paper by:

    Cengiz Gunay, Fred Sieling, Logesh Dharmar, Wei-Hsiang Lin, Verena

    Wolfram, Richard Marley, Richard A. Baines, and Astrid A. Prinz.

    Title: TBD; in preparation.

    Download from:

    http://www.biology.emory.edu/research/Prinz/Cengiz/Gunay_etal_2014.zip

    Requirements:

    XPPAUT 5.99 - http://www.math.pitt.edu/~bard/xpp/xpp.html

    Neuron 7.1 - http://www.neuron.yale.edu

    PANDORA 1.3b - http://software.incf.org/software/pandora

    Directories:

    channels/	Results of channel fits and related figures (see all_channels.m).

    xpp-models/	Isopotential and ball-and-stick models and their figures (see figure_models.m).

    morphological/	Multicompartmental model in Neuron (see figures.m).

    param-fitter/   Matlab code used for channel parameter fitting (add to Matlab path).

    Workflow/history of project:

    - Channel data were fit with the Neurofit tool and then re-adjusted with param-fitter in Matlab.

    - XPP models were built with these channels and hand-tuned to fit observed f-I, v-I, and delay.

    - Neuron model used these channels and some properties of the ball-and-stick model.

    - Morphological reconstruction passive parameters were tuned to recorded capacitance responses.

    - Channel distribution hand tuned to mimick observed current responses.

    Note:

    - Matlab files are scripts with sections that correspond to

    figures. They are NOT meant to be run as a whole. Sections must be run

    separately.

    Please report problems/suggestions/comments to:

    Cengiz Gunay (cengique AT users.sf.net)

    2014/01/08